MmuINT0108814 @ mm10
Intron Retention
Gene
ENSMUSG00000032525 | Nktr
Description
natural killer tumor recognition sequence [Source:MGI Symbol;Acc:MGI:97346]
Coordinates
chr9:121742565-121744144:+
Coord C1 exon
chr9:121742565-121742787
Coord A exon
chr9:121742788-121743988
Coord C2 exon
chr9:121743989-121744144
Length
1201 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
GGTGACTTGATTTATTTTAGTTA
3' ss Score
4.77
Exon sequences
Seq C1 exon
TTTTTGAGAAAAAAAGGAAGAAACCAACCTGTTCAGAAGGCTCGGACTCTTCTTCCCGTTCCTCTTCCTCTTCAGAGTCCTCCTCAGAGAGTGAAGTTGAGCGAGAGACAATCAGAAGGAGAAGACATAAGAGGAGGCCAAAAGTCAGACATGCTAAAAAGAGACGGAAAGAAATGAGCAGTTCAGAAGAACCGAGGAGGAAGCGCACAGTAAGCCCTGAAGG
Seq A exon
GTAAGAGCACCCAGCCTGCAGCCCGGGCACAGACTCCAGTGAGCTCCATGCTCGTACTATACTCGTAGAGGTGAGGAGCACTGGGTTTTAAACTGATCCCTGTAACAATCGAGGAGTGGTGTAGGCATCAGTTGGTGTGATTTTTCAGGTGAAGATAATTCTTGAAATTCTTTTTGTTTGTTTTTAAATTTTAAAGTTTTTAATTTTGTATATTCAAAGATATGTGTGGCAATCAGAAGACAGCTTGCAGTTTCTCTCTCTCTTCTAGATAGGTCCTTTCGACAAAGGCCTCTGCTTGCTGAACTATCTTGCCAGCCCTAATGCCTGAAAATTCTCCCTCTCTCTCATATGTGTGTTTATCTTTTTTACTAATTTTTTAAATCTTATGTGCATTAATGTTTTGCCTGCATGTATGCTGTGTGAGGGTGTCAGATCTTGGAGTTAGAGAGAGTTAGTTATAAGATACTGTGTGGGTGCTGGGAACCCAGGTCCTCTAGAAGAACAGCCAATGCTCTTAACTGATGAGCCATCTCTCCAAACCCTGAAAAGTCTTTCTCTTAAAATACAGTATTTTTTACTTTGAGAATTTCATGCATGTCTACAAAGTAATTTGGTCCTCCACCTTCTAATTCTTCCTTTGAATTCTCCTACCCACTACATCTCCCTCCTCTTTGTTTGCTTTTCTTTCAATAACCTACTGAGCCTACTTAATGTGCAGGGGCACAGGGCCACCCTGTAGAACATAAGACACAGACTGCACCCCTGAAGACAAATGATTCTCCCTAAAGCAAAACTTGGGCCATTGAGCTGGCTCAGAGGCTTCTCACCAAGCCTGACAAGTTGAATTGATTCCTGGGATACACATTGTGAAGAGACAGTCATCTTCCACAAGTAGTTGTCTCACATCTATATCATGGTATGTGCACAGTAGCACACACAGGAAATAGACAGATGAACATGTTTTTAAAGAAGGAAAACATTAAGATCATTGACAACTTCCATTTCAGAATTTTTAGCGCTTGATTTTTTTCTCTTTCAAATTTTTCTTTTAAAAAATTTCTTAGCTCTGGATTTTTTACTGTGTTGTTTTATATATTTGTGAAAATCAAATCAACACTGAGGGTGAGTGTAAGTTTTGCTCTTGTTTTATTTTATAAAATACTAGCATTAATGTATAAATTGGTGACTTGATTTATTTTAG
Seq C2 exon
TTATTCTGAGAGGAGTGATGTGAATGAAAAAAGATCAGTTGACTCAAACACTAAAAGAGAAAAGCCTGTTGTCCGCCCAGAAGAGATTCCTCCAGTTCCCGAGAACCGATTTTTACTTAGAAGAGATATGCCTGCTATCACTGTGGAGCCTGAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032525:ENSMUST00000035112:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.967 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF105004=SR-25=FE(55.2=100)
A:
NA
C2:
PF105004=SR-25=PD(23.9=60.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCAGAAGGCTCGGACTCT
R:
TCAGGCTCCACAGTGATAGCA
Band lengths:
347-1548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types